Multiple sequence alignment - TraesCS3B01G320600

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3B01G320600 chr3B 100.000 2279 0 0 1 2279 519478126 519475848 0.000000e+00 4209.0
1 TraesCS3B01G320600 chr3B 93.205 677 37 5 815 1491 519435592 519434925 0.000000e+00 987.0
2 TraesCS3B01G320600 chr3B 92.154 701 46 5 815 1514 519451255 519450563 0.000000e+00 981.0
3 TraesCS3B01G320600 chr3B 94.918 610 29 1 1670 2279 519450490 519449883 0.000000e+00 953.0
4 TraesCS3B01G320600 chr3B 93.939 627 34 3 1654 2279 519434392 519433769 0.000000e+00 944.0
5 TraesCS3B01G320600 chr3B 92.233 206 12 3 1667 1871 519423181 519422979 2.860000e-74 289.0
6 TraesCS3B01G320600 chr3B 97.183 71 2 0 1502 1572 519434460 519434390 1.110000e-23 121.0
7 TraesCS3B01G320600 chr3D 90.396 833 39 17 767 1572 395052932 395052114 0.000000e+00 1057.0
8 TraesCS3B01G320600 chr3D 85.604 389 38 10 889 1262 48012769 48013154 2.120000e-105 392.0
9 TraesCS3B01G320600 chr3D 85.027 374 50 5 927 1297 48015737 48016107 2.140000e-100 375.0
10 TraesCS3B01G320600 chr3D 81.379 145 11 9 1709 1852 395051752 395051623 1.110000e-18 104.0
11 TraesCS3B01G320600 chr3A 91.679 685 47 4 819 1493 514552975 514552291 0.000000e+00 941.0
12 TraesCS3B01G320600 chr3A 84.865 370 46 7 930 1297 60250874 60251235 4.630000e-97 364.0
13 TraesCS3B01G320600 chr3A 84.548 343 39 13 930 1262 60242507 60242845 6.070000e-86 327.0
14 TraesCS3B01G320600 chr3A 88.672 256 24 4 1 256 514554035 514553785 7.910000e-80 307.0
15 TraesCS3B01G320600 chr1D 84.350 377 52 4 925 1301 475825879 475825510 1.660000e-96 363.0
16 TraesCS3B01G320600 chr1D 75.724 449 68 28 267 681 362573559 362573118 1.070000e-43 187.0
17 TraesCS3B01G320600 chr4D 81.119 429 44 13 284 681 208215485 208215063 2.200000e-80 309.0
18 TraesCS3B01G320600 chr4D 92.079 101 6 2 1568 1667 216743553 216743454 8.490000e-30 141.0
19 TraesCS3B01G320600 chr2B 84.959 246 30 3 1914 2153 34413798 34413554 2.260000e-60 243.0
20 TraesCS3B01G320600 chr2B 93.750 96 6 0 1568 1663 54765904 54765999 6.560000e-31 145.0
21 TraesCS3B01G320600 chr2B 90.566 106 7 3 1571 1675 153760910 153761013 1.100000e-28 137.0
22 TraesCS3B01G320600 chr5D 75.410 488 73 32 267 714 230249144 230249624 2.310000e-45 193.0
23 TraesCS3B01G320600 chr7D 75.730 445 67 29 267 678 473633713 473634149 3.870000e-43 185.0
24 TraesCS3B01G320600 chr7D 94.737 95 4 1 1566 1660 594802410 594802503 1.820000e-31 147.0
25 TraesCS3B01G320600 chr7B 75.467 428 59 30 267 652 716967350 716966927 1.400000e-37 167.0
26 TraesCS3B01G320600 chr7B 82.967 182 17 6 267 434 371447331 371447512 3.920000e-33 152.0
27 TraesCS3B01G320600 chr7B 90.909 110 8 2 1553 1662 536260531 536260638 1.820000e-31 147.0
28 TraesCS3B01G320600 chr7B 91.919 99 8 0 267 365 242288472 242288374 3.050000e-29 139.0
29 TraesCS3B01G320600 chr7B 91.919 99 8 0 267 365 256379885 256379983 3.050000e-29 139.0
30 TraesCS3B01G320600 chr4B 94.624 93 5 0 1567 1659 255382695 255382787 6.560000e-31 145.0
31 TraesCS3B01G320600 chr1A 93.750 96 6 0 1571 1666 118503602 118503697 6.560000e-31 145.0
32 TraesCS3B01G320600 chr1A 88.393 112 11 2 1545 1656 58166731 58166622 1.420000e-27 134.0
33 TraesCS3B01G320600 chr1A 100.000 28 0 0 1797 1824 584498306 584498333 4.000000e-03 52.8
34 TraesCS3B01G320600 chr6D 92.079 101 6 1 259 359 189420600 189420698 8.490000e-30 141.0
35 TraesCS3B01G320600 chr2A 92.079 101 6 2 1566 1666 693209888 693209986 8.490000e-30 141.0
36 TraesCS3B01G320600 chr5B 87.500 120 10 4 252 370 707451307 707451422 1.420000e-27 134.0
37 TraesCS3B01G320600 chr5A 97.059 34 1 0 2029 2062 643653242 643653275 8.790000e-05 58.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G320600 chr3B 519475848 519478126 2278 True 4209.0 4209 100.000000 1 2279 1 chr3B.!!$R2 2278
1 TraesCS3B01G320600 chr3B 519449883 519451255 1372 True 967.0 981 93.536000 815 2279 2 chr3B.!!$R4 1464
2 TraesCS3B01G320600 chr3B 519433769 519435592 1823 True 684.0 987 94.775667 815 2279 3 chr3B.!!$R3 1464
3 TraesCS3B01G320600 chr3D 395051623 395052932 1309 True 580.5 1057 85.887500 767 1852 2 chr3D.!!$R1 1085
4 TraesCS3B01G320600 chr3D 48012769 48016107 3338 False 383.5 392 85.315500 889 1297 2 chr3D.!!$F1 408
5 TraesCS3B01G320600 chr3A 514552291 514554035 1744 True 624.0 941 90.175500 1 1493 2 chr3A.!!$R1 1492

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
632 703 0.033208 TATCCTGTCGGGTAACGGGT 60.033 55.0 0.0 0.0 44.68 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1976 5060 0.901124 ACGCAGCTGAGAAGGAAGAT 59.099 50.0 25.03 0.0 0.0 2.4 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 57 5.431420 AAAGAAACATGCGTACAACATCA 57.569 34.783 0.00 0.00 0.00 3.07
58 59 2.900122 AACATGCGTACAACATCAGC 57.100 45.000 0.00 0.00 0.00 4.26
61 62 1.705337 ATGCGTACAACATCAGCGGC 61.705 55.000 0.00 0.00 0.00 6.53
69 70 0.745845 AACATCAGCGGCATGAGACC 60.746 55.000 1.45 0.00 31.44 3.85
70 71 1.153309 CATCAGCGGCATGAGACCA 60.153 57.895 1.45 0.00 31.44 4.02
71 72 1.153289 ATCAGCGGCATGAGACCAC 60.153 57.895 1.45 0.00 31.44 4.16
72 73 1.902765 ATCAGCGGCATGAGACCACA 61.903 55.000 1.45 0.00 31.44 4.17
85 86 4.688192 CCACATGGTTATTGCGCG 57.312 55.556 0.00 0.00 0.00 6.86
88 89 2.026014 CATGGTTATTGCGCGGGC 59.974 61.111 18.81 18.81 40.52 6.13
121 122 0.247736 GCTGTAGGTGACCTGGTCTG 59.752 60.000 26.03 9.61 34.61 3.51
128 129 2.149383 TGACCTGGTCTGCTGCCTT 61.149 57.895 26.03 0.00 33.15 4.35
155 156 1.540267 GGCAAGATATAGACTCGCCGA 59.460 52.381 0.00 0.00 0.00 5.54
156 157 2.030185 GGCAAGATATAGACTCGCCGAA 60.030 50.000 0.00 0.00 0.00 4.30
170 171 3.777478 TCGCCGAAATCACTAGTTAAGG 58.223 45.455 0.00 0.00 0.00 2.69
225 226 0.310854 GGTGCTAACAAGTGGTGTGC 59.689 55.000 0.00 0.00 40.60 4.57
236 237 2.899838 GGTGTGCGCCACTTGTCA 60.900 61.111 22.54 2.72 43.94 3.58
237 238 2.477176 GGTGTGCGCCACTTGTCAA 61.477 57.895 22.54 0.00 43.94 3.18
249 250 3.493699 CCACTTGTCAAAACGAGGAGGTA 60.494 47.826 0.00 0.00 40.72 3.08
266 267 6.732896 GGAGGTATCCTATATGGGTATGTG 57.267 45.833 4.86 0.00 42.94 3.21
267 268 5.602978 GGAGGTATCCTATATGGGTATGTGG 59.397 48.000 4.86 0.00 42.94 4.17
268 269 5.538877 AGGTATCCTATATGGGTATGTGGG 58.461 45.833 4.86 0.00 33.30 4.61
269 270 5.018522 AGGTATCCTATATGGGTATGTGGGT 59.981 44.000 4.86 0.00 33.30 4.51
270 271 6.223143 AGGTATCCTATATGGGTATGTGGGTA 59.777 42.308 4.86 0.00 33.30 3.69
272 273 7.016268 GGTATCCTATATGGGTATGTGGGTATG 59.984 44.444 4.86 0.00 33.30 2.39
273 274 6.173676 TCCTATATGGGTATGTGGGTATGA 57.826 41.667 4.86 0.00 36.20 2.15
274 275 6.202331 TCCTATATGGGTATGTGGGTATGAG 58.798 44.000 4.86 0.00 36.20 2.90
275 276 6.010201 TCCTATATGGGTATGTGGGTATGAGA 60.010 42.308 4.86 0.00 36.20 3.27
276 277 6.098409 CCTATATGGGTATGTGGGTATGAGAC 59.902 46.154 0.00 0.00 0.00 3.36
277 278 3.123392 TGGGTATGTGGGTATGAGACA 57.877 47.619 0.00 0.00 0.00 3.41
278 279 3.455849 TGGGTATGTGGGTATGAGACAA 58.544 45.455 0.00 0.00 0.00 3.18
280 281 4.476846 TGGGTATGTGGGTATGAGACAAAT 59.523 41.667 0.00 0.00 0.00 2.32
282 283 6.183361 TGGGTATGTGGGTATGAGACAAATAG 60.183 42.308 0.00 0.00 0.00 1.73
283 284 6.183361 GGGTATGTGGGTATGAGACAAATAGT 60.183 42.308 0.00 0.00 0.00 2.12
285 286 8.426489 GGTATGTGGGTATGAGACAAATAGTTA 58.574 37.037 0.00 0.00 0.00 2.24
286 287 9.257651 GTATGTGGGTATGAGACAAATAGTTAC 57.742 37.037 0.00 0.00 0.00 2.50
287 288 6.646267 TGTGGGTATGAGACAAATAGTTACC 58.354 40.000 0.00 0.00 31.76 2.85
288 289 6.053650 GTGGGTATGAGACAAATAGTTACCC 58.946 44.000 8.06 8.06 44.85 3.69
289 290 6.243216 GGGTATGAGACAAATAGTTACCCA 57.757 41.667 9.77 0.00 44.37 4.51
290 291 6.838382 GGGTATGAGACAAATAGTTACCCAT 58.162 40.000 9.77 0.00 44.37 4.00
291 292 6.710744 GGGTATGAGACAAATAGTTACCCATG 59.289 42.308 9.77 0.00 44.37 3.66
292 293 6.710744 GGTATGAGACAAATAGTTACCCATGG 59.289 42.308 4.14 4.14 0.00 3.66
293 294 5.110814 TGAGACAAATAGTTACCCATGGG 57.889 43.478 30.23 30.23 42.03 4.00
311 312 8.996651 CCCATGGGTATATAAATAGGGAAATC 57.003 38.462 23.93 0.00 35.81 2.17
312 313 8.791749 CCCATGGGTATATAAATAGGGAAATCT 58.208 37.037 23.93 0.00 35.81 2.40
313 314 9.632638 CCATGGGTATATAAATAGGGAAATCTG 57.367 37.037 2.85 0.00 0.00 2.90
322 323 8.712228 ATAAATAGGGAAATCTGAAACCCATC 57.288 34.615 15.74 0.00 44.25 3.51
323 324 3.004752 AGGGAAATCTGAAACCCATCG 57.995 47.619 15.74 0.00 44.25 3.84
334 335 3.616721 CCCATCGGGTAGAGCGGG 61.617 72.222 0.00 0.00 38.25 6.13
336 337 1.529948 CCATCGGGTAGAGCGGGTA 60.530 63.158 0.00 0.00 0.00 3.69
337 338 1.658673 CATCGGGTAGAGCGGGTAC 59.341 63.158 0.00 0.00 0.00 3.34
338 339 1.895707 ATCGGGTAGAGCGGGTACG 60.896 63.158 0.00 0.00 44.63 3.67
340 341 2.124151 GGGTAGAGCGGGTACGGA 60.124 66.667 0.00 0.00 41.36 4.69
342 343 0.250901 GGGTAGAGCGGGTACGGATA 60.251 60.000 0.00 0.00 41.36 2.59
343 344 1.615384 GGGTAGAGCGGGTACGGATAT 60.615 57.143 0.00 0.00 41.36 1.63
346 347 1.535833 AGAGCGGGTACGGATATGAG 58.464 55.000 0.00 0.00 41.36 2.90
347 348 1.073444 AGAGCGGGTACGGATATGAGA 59.927 52.381 0.00 0.00 41.36 3.27
349 350 2.093106 AGCGGGTACGGATATGAGATC 58.907 52.381 0.00 0.00 41.36 2.75
350 351 1.202154 GCGGGTACGGATATGAGATCG 60.202 57.143 0.00 0.00 41.36 3.69
351 352 2.082231 CGGGTACGGATATGAGATCGT 58.918 52.381 0.00 0.00 39.30 3.73
353 354 3.875727 CGGGTACGGATATGAGATCGTAT 59.124 47.826 0.00 0.00 39.68 3.06
355 356 5.525012 CGGGTACGGATATGAGATCGTATAA 59.475 44.000 0.00 0.00 39.68 0.98
358 359 7.185453 GGTACGGATATGAGATCGTATAACAC 58.815 42.308 0.00 0.00 39.68 3.32
361 362 8.502105 ACGGATATGAGATCGTATAACACATA 57.498 34.615 0.00 0.00 33.89 2.29
364 365 8.136165 GGATATGAGATCGTATAACACATACCC 58.864 40.741 0.00 0.00 0.00 3.69
365 366 6.911250 ATGAGATCGTATAACACATACCCA 57.089 37.500 0.00 0.00 0.00 4.51
366 367 6.911250 TGAGATCGTATAACACATACCCAT 57.089 37.500 0.00 0.00 0.00 4.00
367 368 8.589701 ATGAGATCGTATAACACATACCCATA 57.410 34.615 0.00 0.00 0.00 2.74
381 382 7.297936 ACATACCCATATAATGTGAACTCGA 57.702 36.000 0.00 0.00 32.74 4.04
385 386 9.793259 ATACCCATATAATGTGAACTCGAAAAT 57.207 29.630 0.00 0.00 0.00 1.82
395 396 8.635877 ATGTGAACTCGAAAATATCTCTACAC 57.364 34.615 0.00 0.00 0.00 2.90
396 397 7.827701 TGTGAACTCGAAAATATCTCTACACT 58.172 34.615 0.00 0.00 0.00 3.55
397 398 8.304596 TGTGAACTCGAAAATATCTCTACACTT 58.695 33.333 0.00 0.00 0.00 3.16
398 399 9.784680 GTGAACTCGAAAATATCTCTACACTTA 57.215 33.333 0.00 0.00 0.00 2.24
404 405 9.952188 TCGAAAATATCTCTACACTTAGTCATG 57.048 33.333 0.00 0.00 0.00 3.07
405 406 9.952188 CGAAAATATCTCTACACTTAGTCATGA 57.048 33.333 0.00 0.00 0.00 3.07
412 413 9.950496 ATCTCTACACTTAGTCATGAATTTGTT 57.050 29.630 0.00 0.00 0.00 2.83
418 419 9.337396 ACACTTAGTCATGAATTTGTTAACTCA 57.663 29.630 0.00 2.44 0.00 3.41
466 537 6.851222 TGTTGTTTTGATGTGTTGTTGTTT 57.149 29.167 0.00 0.00 0.00 2.83
469 540 7.011389 TGTTGTTTTGATGTGTTGTTGTTTTCA 59.989 29.630 0.00 0.00 0.00 2.69
470 541 7.482654 TGTTTTGATGTGTTGTTGTTTTCAA 57.517 28.000 0.00 0.00 37.48 2.69
476 547 7.151308 TGATGTGTTGTTGTTTTCAAGAAAGT 58.849 30.769 0.00 0.00 43.01 2.66
477 548 6.761731 TGTGTTGTTGTTTTCAAGAAAGTG 57.238 33.333 0.00 0.00 43.01 3.16
479 550 7.151308 TGTGTTGTTGTTTTCAAGAAAGTGAT 58.849 30.769 0.00 0.00 43.01 3.06
480 551 8.300286 TGTGTTGTTGTTTTCAAGAAAGTGATA 58.700 29.630 0.00 0.00 43.01 2.15
481 552 9.301153 GTGTTGTTGTTTTCAAGAAAGTGATAT 57.699 29.630 0.00 0.00 43.01 1.63
516 587 9.897744 AAATATGTTGTAGTTTCTGATGTGTTG 57.102 29.630 0.00 0.00 0.00 3.33
517 588 6.942532 ATGTTGTAGTTTCTGATGTGTTGT 57.057 33.333 0.00 0.00 0.00 3.32
518 589 6.117911 TGTTGTAGTTTCTGATGTGTTGTG 57.882 37.500 0.00 0.00 0.00 3.33
520 591 4.776349 TGTAGTTTCTGATGTGTTGTGGT 58.224 39.130 0.00 0.00 0.00 4.16
523 594 6.824196 TGTAGTTTCTGATGTGTTGTGGTTTA 59.176 34.615 0.00 0.00 0.00 2.01
525 596 8.995220 GTAGTTTCTGATGTGTTGTGGTTTATA 58.005 33.333 0.00 0.00 0.00 0.98
529 600 9.733556 TTTCTGATGTGTTGTGGTTTATAGTAT 57.266 29.630 0.00 0.00 0.00 2.12
556 627 9.677567 AATTACATGTTGTTGTTTATGACTGAC 57.322 29.630 2.30 0.00 0.00 3.51
560 631 8.506437 ACATGTTGTTGTTTATGACTGACTATG 58.494 33.333 0.00 0.00 0.00 2.23
561 632 8.720562 CATGTTGTTGTTTATGACTGACTATGA 58.279 33.333 0.00 0.00 0.00 2.15
562 633 8.669946 TGTTGTTGTTTATGACTGACTATGAA 57.330 30.769 0.00 0.00 0.00 2.57
566 637 9.283768 TGTTGTTTATGACTGACTATGAATTGT 57.716 29.630 0.00 0.00 0.00 2.71
571 642 9.942850 TTTATGACTGACTATGAATTGTTCAGA 57.057 29.630 3.99 0.00 43.98 3.27
584 655 8.883954 TGAATTGTTCAGATATTTTGCAAACA 57.116 26.923 12.39 3.01 34.08 2.83
585 656 9.491675 TGAATTGTTCAGATATTTTGCAAACAT 57.508 25.926 12.39 8.28 34.08 2.71
586 657 9.749490 GAATTGTTCAGATATTTTGCAAACATG 57.251 29.630 12.39 6.65 0.00 3.21
587 658 7.655236 TTGTTCAGATATTTTGCAAACATGG 57.345 32.000 12.39 3.63 0.00 3.66
588 659 6.164876 TGTTCAGATATTTTGCAAACATGGG 58.835 36.000 12.39 0.58 0.00 4.00
590 661 7.039434 TGTTCAGATATTTTGCAAACATGGGTA 60.039 33.333 12.39 0.00 0.00 3.69
591 662 7.473735 TCAGATATTTTGCAAACATGGGTAA 57.526 32.000 12.39 0.00 0.00 2.85
595 666 9.737844 AGATATTTTGCAAACATGGGTAATTTT 57.262 25.926 12.39 0.00 0.00 1.82
599 670 9.737844 ATTTTGCAAACATGGGTAATTTTATCT 57.262 25.926 12.39 0.00 0.00 1.98
601 672 9.646427 TTTGCAAACATGGGTAATTTTATCTAC 57.354 29.630 8.05 0.00 0.00 2.59
602 673 7.476667 TGCAAACATGGGTAATTTTATCTACG 58.523 34.615 0.00 0.00 0.00 3.51
603 674 6.915843 GCAAACATGGGTAATTTTATCTACGG 59.084 38.462 0.00 0.00 0.00 4.02
604 675 7.422399 CAAACATGGGTAATTTTATCTACGGG 58.578 38.462 0.00 0.00 0.00 5.28
607 678 7.219322 ACATGGGTAATTTTATCTACGGGTAC 58.781 38.462 0.00 0.00 0.00 3.34
622 693 0.950116 GGTACCCGTCTATCCTGTCG 59.050 60.000 0.00 0.00 0.00 4.35
623 694 0.950116 GTACCCGTCTATCCTGTCGG 59.050 60.000 0.00 0.00 42.22 4.79
625 696 4.254721 CCGTCTATCCTGTCGGGT 57.745 61.111 0.00 0.00 39.41 5.28
626 697 3.409201 CCGTCTATCCTGTCGGGTA 57.591 57.895 0.00 0.00 39.41 3.69
627 698 1.683943 CCGTCTATCCTGTCGGGTAA 58.316 55.000 0.00 0.00 39.41 2.85
628 699 1.336125 CCGTCTATCCTGTCGGGTAAC 59.664 57.143 0.00 0.00 39.41 2.50
629 700 1.003116 CGTCTATCCTGTCGGGTAACG 60.003 57.143 0.00 0.69 46.11 3.18
630 701 1.336125 GTCTATCCTGTCGGGTAACGG 59.664 57.143 0.00 0.00 44.45 4.44
631 702 0.672342 CTATCCTGTCGGGTAACGGG 59.328 60.000 0.00 0.00 45.59 5.28
632 703 0.033208 TATCCTGTCGGGTAACGGGT 60.033 55.000 0.00 0.00 44.68 5.28
634 705 1.980772 CCTGTCGGGTAACGGGTCT 60.981 63.158 0.00 0.00 44.45 3.85
635 706 1.214589 CTGTCGGGTAACGGGTCTG 59.785 63.158 0.00 0.00 44.45 3.51
642 713 2.548493 CGGGTAACGGGTCTGAGAAAAA 60.548 50.000 0.00 0.00 39.42 1.94
666 737 5.692115 ATTGTACCACTGATGTGTATGGA 57.308 39.130 0.00 0.00 42.34 3.41
667 738 5.692115 TTGTACCACTGATGTGTATGGAT 57.308 39.130 0.00 0.00 42.34 3.41
668 739 6.800072 TTGTACCACTGATGTGTATGGATA 57.200 37.500 0.00 0.00 42.34 2.59
670 741 7.189079 TGTACCACTGATGTGTATGGATAAA 57.811 36.000 0.00 0.00 42.34 1.40
671 742 7.272244 TGTACCACTGATGTGTATGGATAAAG 58.728 38.462 0.00 0.00 42.34 1.85
674 745 6.994496 ACCACTGATGTGTATGGATAAAGATG 59.006 38.462 0.00 0.00 42.34 2.90
675 746 7.147497 ACCACTGATGTGTATGGATAAAGATGA 60.147 37.037 0.00 0.00 42.34 2.92
677 748 8.718734 CACTGATGTGTATGGATAAAGATGATG 58.281 37.037 0.00 0.00 39.24 3.07
678 749 8.654094 ACTGATGTGTATGGATAAAGATGATGA 58.346 33.333 0.00 0.00 0.00 2.92
679 750 9.152595 CTGATGTGTATGGATAAAGATGATGAG 57.847 37.037 0.00 0.00 0.00 2.90
680 751 8.654094 TGATGTGTATGGATAAAGATGATGAGT 58.346 33.333 0.00 0.00 0.00 3.41
681 752 9.499479 GATGTGTATGGATAAAGATGATGAGTT 57.501 33.333 0.00 0.00 0.00 3.01
682 753 9.857656 ATGTGTATGGATAAAGATGATGAGTTT 57.142 29.630 0.00 0.00 0.00 2.66
686 757 9.442047 GTATGGATAAAGATGATGAGTTTAGGG 57.558 37.037 0.00 0.00 0.00 3.53
687 758 6.841601 TGGATAAAGATGATGAGTTTAGGGG 58.158 40.000 0.00 0.00 0.00 4.79
690 761 7.609532 GGATAAAGATGATGAGTTTAGGGGATG 59.390 40.741 0.00 0.00 0.00 3.51
691 762 5.983333 AAGATGATGAGTTTAGGGGATGT 57.017 39.130 0.00 0.00 0.00 3.06
692 763 5.301835 AGATGATGAGTTTAGGGGATGTG 57.698 43.478 0.00 0.00 0.00 3.21
693 764 4.723789 AGATGATGAGTTTAGGGGATGTGT 59.276 41.667 0.00 0.00 0.00 3.72
695 766 6.386927 AGATGATGAGTTTAGGGGATGTGTAA 59.613 38.462 0.00 0.00 0.00 2.41
696 767 6.381498 TGATGAGTTTAGGGGATGTGTAAA 57.619 37.500 0.00 0.00 0.00 2.01
697 768 6.414732 TGATGAGTTTAGGGGATGTGTAAAG 58.585 40.000 0.00 0.00 0.00 1.85
698 769 5.174037 TGAGTTTAGGGGATGTGTAAAGG 57.826 43.478 0.00 0.00 0.00 3.11
699 770 4.600111 TGAGTTTAGGGGATGTGTAAAGGT 59.400 41.667 0.00 0.00 0.00 3.50
700 771 5.786457 TGAGTTTAGGGGATGTGTAAAGGTA 59.214 40.000 0.00 0.00 0.00 3.08
701 772 6.445786 TGAGTTTAGGGGATGTGTAAAGGTAT 59.554 38.462 0.00 0.00 0.00 2.73
702 773 6.659824 AGTTTAGGGGATGTGTAAAGGTATG 58.340 40.000 0.00 0.00 0.00 2.39
703 774 6.445786 AGTTTAGGGGATGTGTAAAGGTATGA 59.554 38.462 0.00 0.00 0.00 2.15
704 775 6.494666 TTAGGGGATGTGTAAAGGTATGAG 57.505 41.667 0.00 0.00 0.00 2.90
705 776 3.716872 AGGGGATGTGTAAAGGTATGAGG 59.283 47.826 0.00 0.00 0.00 3.86
706 777 3.458487 GGGGATGTGTAAAGGTATGAGGT 59.542 47.826 0.00 0.00 0.00 3.85
707 778 4.451900 GGGATGTGTAAAGGTATGAGGTG 58.548 47.826 0.00 0.00 0.00 4.00
708 779 4.451900 GGATGTGTAAAGGTATGAGGTGG 58.548 47.826 0.00 0.00 0.00 4.61
709 780 3.343941 TGTGTAAAGGTATGAGGTGGC 57.656 47.619 0.00 0.00 0.00 5.01
710 781 2.026636 TGTGTAAAGGTATGAGGTGGCC 60.027 50.000 0.00 0.00 0.00 5.36
712 783 1.562475 GTAAAGGTATGAGGTGGCCCA 59.438 52.381 0.00 0.00 0.00 5.36
713 784 0.331616 AAAGGTATGAGGTGGCCCAC 59.668 55.000 4.93 4.93 0.00 4.61
714 785 0.550147 AAGGTATGAGGTGGCCCACT 60.550 55.000 14.71 0.00 34.40 4.00
737 995 2.671619 GGTAGGCCGCAACAGCAA 60.672 61.111 0.00 0.00 0.00 3.91
743 1001 1.286880 GCCGCAACAGCAATGAACT 59.713 52.632 0.00 0.00 0.00 3.01
752 1010 3.664930 GCAATGAACTGTGCTCGAC 57.335 52.632 0.00 0.00 37.78 4.20
753 1011 0.166814 GCAATGAACTGTGCTCGACC 59.833 55.000 0.00 0.00 37.78 4.79
754 1012 0.439985 CAATGAACTGTGCTCGACCG 59.560 55.000 0.00 0.00 0.00 4.79
755 1013 0.317160 AATGAACTGTGCTCGACCGA 59.683 50.000 0.00 0.00 0.00 4.69
756 1014 0.532573 ATGAACTGTGCTCGACCGAT 59.467 50.000 0.00 0.00 0.00 4.18
757 1015 0.388520 TGAACTGTGCTCGACCGATG 60.389 55.000 0.00 0.00 0.00 3.84
781 1080 2.112815 GCGCTCGGCCCACTAATTT 61.113 57.895 0.00 0.00 34.80 1.82
782 1081 1.721487 CGCTCGGCCCACTAATTTG 59.279 57.895 0.00 0.00 0.00 2.32
793 1092 6.435428 GGCCCACTAATTTGATACGTTATTG 58.565 40.000 0.00 0.00 0.00 1.90
797 1096 8.548721 CCCACTAATTTGATACGTTATTGTCTC 58.451 37.037 0.00 0.00 0.00 3.36
811 1110 9.503427 ACGTTATTGTCTCAAAAAGAAAGAAAG 57.497 29.630 0.00 0.00 35.21 2.62
828 1128 7.448469 AGAAAGAAAGAAAAGGAATGATCGGAA 59.552 33.333 0.00 0.00 0.00 4.30
858 1158 3.019783 TTGGACCCCAAGTTGCCA 58.980 55.556 0.00 0.00 38.75 4.92
974 1287 1.299850 CTCGACGCACAGAACCACA 60.300 57.895 0.00 0.00 0.00 4.17
996 1312 0.660300 GCAAACCAAGGAAACGAGCG 60.660 55.000 0.00 0.00 0.00 5.03
1276 1598 1.211457 ACTACTACTCGACGGGATGGT 59.789 52.381 0.00 0.00 0.00 3.55
1461 1816 4.800993 CAGCTCGATTATCTTCGTGACTTT 59.199 41.667 0.00 0.00 40.03 2.66
1558 2375 5.190677 TCGACATGAGGAGTTGTATACTGA 58.809 41.667 0.00 0.00 37.17 3.41
1576 2393 4.065321 CTGAATCCAGTGATGTACTCCC 57.935 50.000 0.00 0.00 37.60 4.30
1577 2394 3.708631 CTGAATCCAGTGATGTACTCCCT 59.291 47.826 0.00 0.00 37.60 4.20
1578 2395 3.706594 TGAATCCAGTGATGTACTCCCTC 59.293 47.826 0.00 0.00 37.60 4.30
1579 2396 2.160721 TCCAGTGATGTACTCCCTCC 57.839 55.000 0.00 0.00 37.60 4.30
1580 2397 0.747255 CCAGTGATGTACTCCCTCCG 59.253 60.000 0.00 0.00 37.60 4.63
1581 2398 1.475403 CAGTGATGTACTCCCTCCGT 58.525 55.000 0.00 0.00 37.60 4.69
1582 2399 1.825474 CAGTGATGTACTCCCTCCGTT 59.175 52.381 0.00 0.00 37.60 4.44
1583 2400 2.100989 AGTGATGTACTCCCTCCGTTC 58.899 52.381 0.00 0.00 33.17 3.95
1584 2401 1.136500 GTGATGTACTCCCTCCGTTCC 59.864 57.143 0.00 0.00 0.00 3.62
1585 2402 1.272816 TGATGTACTCCCTCCGTTCCA 60.273 52.381 0.00 0.00 0.00 3.53
1586 2403 1.829222 GATGTACTCCCTCCGTTCCAA 59.171 52.381 0.00 0.00 0.00 3.53
1587 2404 1.719529 TGTACTCCCTCCGTTCCAAA 58.280 50.000 0.00 0.00 0.00 3.28
1588 2405 2.048601 TGTACTCCCTCCGTTCCAAAA 58.951 47.619 0.00 0.00 0.00 2.44
1589 2406 2.640826 TGTACTCCCTCCGTTCCAAAAT 59.359 45.455 0.00 0.00 0.00 1.82
1590 2407 3.839490 TGTACTCCCTCCGTTCCAAAATA 59.161 43.478 0.00 0.00 0.00 1.40
1591 2408 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
1592 2409 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
1593 2410 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
1594 2411 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
1595 2412 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
1596 2413 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
1597 2414 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
1598 2415 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
1599 2416 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
1600 2417 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
1601 2418 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
1602 2419 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
1603 2420 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
1604 2421 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
1605 2422 8.717821 CGTTCCAAAATAGATGACTCAACTTTA 58.282 33.333 0.00 0.00 0.00 1.85
1631 2448 9.694137 ATACAAACTTTAGTACAGAGTTGAGTC 57.306 33.333 8.64 0.00 34.13 3.36
1632 2449 7.553334 ACAAACTTTAGTACAGAGTTGAGTCA 58.447 34.615 8.64 0.00 34.13 3.41
1633 2450 8.204836 ACAAACTTTAGTACAGAGTTGAGTCAT 58.795 33.333 8.64 0.00 34.13 3.06
1634 2451 8.704234 CAAACTTTAGTACAGAGTTGAGTCATC 58.296 37.037 8.64 0.00 34.13 2.92
1635 2452 7.768807 ACTTTAGTACAGAGTTGAGTCATCT 57.231 36.000 3.29 3.29 0.00 2.90
1636 2453 8.865420 ACTTTAGTACAGAGTTGAGTCATCTA 57.135 34.615 3.66 0.00 0.00 1.98
1637 2454 9.469097 ACTTTAGTACAGAGTTGAGTCATCTAT 57.531 33.333 3.66 0.00 0.00 1.98
1641 2458 8.994429 AGTACAGAGTTGAGTCATCTATTTTG 57.006 34.615 3.66 4.07 0.00 2.44
1642 2459 8.807118 AGTACAGAGTTGAGTCATCTATTTTGA 58.193 33.333 3.66 0.00 0.00 2.69
1643 2460 9.424319 GTACAGAGTTGAGTCATCTATTTTGAA 57.576 33.333 3.66 0.00 0.00 2.69
1644 2461 8.908786 ACAGAGTTGAGTCATCTATTTTGAAA 57.091 30.769 3.66 0.00 0.00 2.69
1645 2462 8.778358 ACAGAGTTGAGTCATCTATTTTGAAAC 58.222 33.333 3.66 0.00 0.00 2.78
1646 2463 7.954248 CAGAGTTGAGTCATCTATTTTGAAACG 59.046 37.037 3.66 0.00 0.00 3.60
1647 2464 7.118390 AGAGTTGAGTCATCTATTTTGAAACGG 59.882 37.037 3.66 0.00 0.00 4.44
1648 2465 6.934645 AGTTGAGTCATCTATTTTGAAACGGA 59.065 34.615 1.70 0.00 0.00 4.69
1649 2466 6.968131 TGAGTCATCTATTTTGAAACGGAG 57.032 37.500 0.00 0.00 0.00 4.63
1650 2467 6.697395 TGAGTCATCTATTTTGAAACGGAGA 58.303 36.000 0.00 0.00 0.00 3.71
1651 2468 6.813649 TGAGTCATCTATTTTGAAACGGAGAG 59.186 38.462 0.00 0.00 0.00 3.20
1652 2469 6.936279 AGTCATCTATTTTGAAACGGAGAGA 58.064 36.000 0.00 0.00 0.00 3.10
1753 4835 1.614413 CTCCCAAGATACTACCTCCGC 59.386 57.143 0.00 0.00 0.00 5.54
1755 4837 1.341531 CCCAAGATACTACCTCCGCAG 59.658 57.143 0.00 0.00 0.00 5.18
1899 4983 1.290955 CACCTAAACAGCCGTCCGA 59.709 57.895 0.00 0.00 0.00 4.55
1912 4996 0.387202 CGTCCGATCTGATGGAAGCT 59.613 55.000 9.44 0.00 35.67 3.74
1958 5042 3.750162 CGACTACCTCGCAACACG 58.250 61.111 0.00 0.00 45.62 4.49
1976 5060 1.214673 ACGGGAGCATAGACTACCTCA 59.785 52.381 11.87 0.00 38.69 3.86
2156 5296 1.962822 CTGCAGCTCCGACAAAGCA 60.963 57.895 0.00 0.00 42.35 3.91
2173 5324 2.125310 ATCAATGACCGCCGCGAA 60.125 55.556 15.93 0.00 0.00 4.70
2203 5354 2.936202 CAACCCCGATGGAGATTCAAT 58.064 47.619 0.00 0.00 38.00 2.57
2231 5382 1.082496 GCGCTTCACTGCAACTCAC 60.082 57.895 0.00 0.00 0.00 3.51
2252 5403 0.319083 CAATGCTTTCTTGCAGCCCA 59.681 50.000 0.00 0.00 46.71 5.36
2265 5416 1.471119 CAGCCCAGACAAAGCATCAT 58.529 50.000 0.00 0.00 0.00 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 0.721154 CGCTGATGTTGTACGCATGT 59.279 50.000 7.36 0.00 0.00 3.21
45 46 0.026674 CATGCCGCTGATGTTGTACG 59.973 55.000 0.00 0.00 0.00 3.67
48 49 0.036105 TCTCATGCCGCTGATGTTGT 60.036 50.000 0.00 0.00 0.00 3.32
56 57 1.450848 CATGTGGTCTCATGCCGCT 60.451 57.895 3.52 0.00 38.65 5.52
58 59 3.817787 CCATGTGGTCTCATGCCG 58.182 61.111 7.31 0.00 42.44 5.69
69 70 1.063972 CCCGCGCAATAACCATGTG 59.936 57.895 8.75 0.00 0.00 3.21
70 71 2.770589 GCCCGCGCAATAACCATGT 61.771 57.895 8.75 0.00 34.03 3.21
71 72 2.026014 GCCCGCGCAATAACCATG 59.974 61.111 8.75 0.00 34.03 3.66
72 73 3.216292 GGCCCGCGCAATAACCAT 61.216 61.111 8.75 0.00 36.38 3.55
88 89 1.320344 TACAGCGAGCCAGTAGTGGG 61.320 60.000 18.46 2.92 45.17 4.61
186 187 1.003233 CTAACAAGGTGGGGAGTGACC 59.997 57.143 0.00 0.00 38.08 4.02
225 226 0.041312 CCTCGTTTTGACAAGTGGCG 60.041 55.000 0.00 0.00 0.00 5.69
249 250 6.762571 TCATACCCACATACCCATATAGGAT 58.237 40.000 0.00 0.00 41.22 3.24
256 257 3.664320 TGTCTCATACCCACATACCCAT 58.336 45.455 0.00 0.00 0.00 4.00
258 259 4.497291 TTTGTCTCATACCCACATACCC 57.503 45.455 0.00 0.00 0.00 3.69
259 260 6.827727 ACTATTTGTCTCATACCCACATACC 58.172 40.000 0.00 0.00 0.00 2.73
260 261 9.257651 GTAACTATTTGTCTCATACCCACATAC 57.742 37.037 0.00 0.00 0.00 2.39
261 262 8.426489 GGTAACTATTTGTCTCATACCCACATA 58.574 37.037 0.00 0.00 0.00 2.29
262 263 7.280356 GGTAACTATTTGTCTCATACCCACAT 58.720 38.462 0.00 0.00 0.00 3.21
264 265 6.053650 GGGTAACTATTTGTCTCATACCCAC 58.946 44.000 12.11 0.00 43.25 4.61
265 266 6.243216 GGGTAACTATTTGTCTCATACCCA 57.757 41.667 12.11 0.00 43.25 4.51
266 267 6.243216 TGGGTAACTATTTGTCTCATACCC 57.757 41.667 10.46 10.46 43.69 3.69
267 268 6.710744 CCATGGGTAACTATTTGTCTCATACC 59.289 42.308 2.85 0.00 34.29 2.73
268 269 6.710744 CCCATGGGTAACTATTTGTCTCATAC 59.289 42.308 23.93 0.00 34.29 2.39
269 270 6.837312 CCCATGGGTAACTATTTGTCTCATA 58.163 40.000 23.93 0.00 34.29 2.15
270 271 5.694995 CCCATGGGTAACTATTTGTCTCAT 58.305 41.667 23.93 0.00 34.29 2.90
286 287 8.791749 AGATTTCCCTATTTATATACCCATGGG 58.208 37.037 30.23 30.23 42.03 4.00
287 288 9.632638 CAGATTTCCCTATTTATATACCCATGG 57.367 37.037 4.14 4.14 0.00 3.66
296 297 9.807921 GATGGGTTTCAGATTTCCCTATTTATA 57.192 33.333 0.00 0.00 40.48 0.98
298 299 6.770785 CGATGGGTTTCAGATTTCCCTATTTA 59.229 38.462 0.00 0.00 40.48 1.40
300 301 5.133221 CGATGGGTTTCAGATTTCCCTATT 58.867 41.667 0.00 0.00 40.48 1.73
301 302 4.446311 CCGATGGGTTTCAGATTTCCCTAT 60.446 45.833 0.00 0.00 40.48 2.57
302 303 3.118038 CCGATGGGTTTCAGATTTCCCTA 60.118 47.826 0.00 0.00 40.48 3.53
303 304 2.357154 CCGATGGGTTTCAGATTTCCCT 60.357 50.000 0.00 0.00 40.48 4.20
305 306 2.024414 CCCGATGGGTTTCAGATTTCC 58.976 52.381 0.00 0.00 38.25 3.13
318 319 1.529948 TACCCGCTCTACCCGATGG 60.530 63.158 0.00 0.00 37.80 3.51
320 321 1.895707 CGTACCCGCTCTACCCGAT 60.896 63.158 0.00 0.00 0.00 4.18
321 322 2.514592 CGTACCCGCTCTACCCGA 60.515 66.667 0.00 0.00 0.00 5.14
322 323 3.589881 CCGTACCCGCTCTACCCG 61.590 72.222 0.00 0.00 0.00 5.28
323 324 0.250901 TATCCGTACCCGCTCTACCC 60.251 60.000 0.00 0.00 0.00 3.69
325 326 2.419324 CTCATATCCGTACCCGCTCTAC 59.581 54.545 0.00 0.00 0.00 2.59
327 328 1.073444 TCTCATATCCGTACCCGCTCT 59.927 52.381 0.00 0.00 0.00 4.09
328 329 1.531423 TCTCATATCCGTACCCGCTC 58.469 55.000 0.00 0.00 0.00 5.03
329 330 2.093106 GATCTCATATCCGTACCCGCT 58.907 52.381 0.00 0.00 0.00 5.52
330 331 1.202154 CGATCTCATATCCGTACCCGC 60.202 57.143 0.00 0.00 0.00 6.13
331 332 2.082231 ACGATCTCATATCCGTACCCG 58.918 52.381 0.00 0.00 33.13 5.28
332 333 6.317140 TGTTATACGATCTCATATCCGTACCC 59.683 42.308 0.00 0.00 39.77 3.69
333 334 7.148356 TGTGTTATACGATCTCATATCCGTACC 60.148 40.741 0.00 0.00 39.77 3.34
334 335 7.745972 TGTGTTATACGATCTCATATCCGTAC 58.254 38.462 0.00 0.00 39.77 3.67
336 337 6.812879 TGTGTTATACGATCTCATATCCGT 57.187 37.500 0.00 0.00 38.82 4.69
337 338 7.856398 GGTATGTGTTATACGATCTCATATCCG 59.144 40.741 0.00 0.00 0.00 4.18
338 339 8.136165 GGGTATGTGTTATACGATCTCATATCC 58.864 40.741 0.00 0.00 34.22 2.59
340 341 8.589701 TGGGTATGTGTTATACGATCTCATAT 57.410 34.615 0.00 0.00 0.00 1.78
342 343 6.911250 TGGGTATGTGTTATACGATCTCAT 57.089 37.500 0.00 0.00 0.00 2.90
343 344 6.911250 ATGGGTATGTGTTATACGATCTCA 57.089 37.500 0.00 0.00 0.00 3.27
349 350 9.863845 TCACATTATATGGGTATGTGTTATACG 57.136 33.333 12.14 0.00 45.76 3.06
353 354 9.772973 GAGTTCACATTATATGGGTATGTGTTA 57.227 33.333 12.14 2.86 45.76 2.41
355 356 6.929049 CGAGTTCACATTATATGGGTATGTGT 59.071 38.462 12.14 0.00 45.76 3.72
358 359 8.601845 TTTCGAGTTCACATTATATGGGTATG 57.398 34.615 0.00 0.00 34.56 2.39
361 362 9.793259 ATATTTTCGAGTTCACATTATATGGGT 57.207 29.630 0.00 0.00 34.56 4.51
371 372 7.827701 AGTGTAGAGATATTTTCGAGTTCACA 58.172 34.615 0.00 0.00 0.00 3.58
372 373 8.690680 AAGTGTAGAGATATTTTCGAGTTCAC 57.309 34.615 0.00 0.00 0.00 3.18
376 377 9.175312 TGACTAAGTGTAGAGATATTTTCGAGT 57.825 33.333 0.00 0.00 0.00 4.18
379 380 9.952188 TCATGACTAAGTGTAGAGATATTTTCG 57.048 33.333 0.00 0.00 0.00 3.46
386 387 9.950496 AACAAATTCATGACTAAGTGTAGAGAT 57.050 29.630 0.00 0.00 0.00 2.75
438 439 9.809096 ACAACAACACATCAAAACAACATTATA 57.191 25.926 0.00 0.00 0.00 0.98
440 441 8.539770 AACAACAACACATCAAAACAACATTA 57.460 26.923 0.00 0.00 0.00 1.90
442 443 7.432350 AAACAACAACACATCAAAACAACAT 57.568 28.000 0.00 0.00 0.00 2.71
443 444 6.851222 AAACAACAACACATCAAAACAACA 57.149 29.167 0.00 0.00 0.00 3.33
444 445 7.348201 TGAAAACAACAACACATCAAAACAAC 58.652 30.769 0.00 0.00 0.00 3.32
445 446 7.482654 TGAAAACAACAACACATCAAAACAA 57.517 28.000 0.00 0.00 0.00 2.83
446 447 7.439356 TCTTGAAAACAACAACACATCAAAACA 59.561 29.630 0.00 0.00 0.00 2.83
448 449 7.953158 TCTTGAAAACAACAACACATCAAAA 57.047 28.000 0.00 0.00 0.00 2.44
449 450 7.953158 TTCTTGAAAACAACAACACATCAAA 57.047 28.000 0.00 0.00 0.00 2.69
450 451 7.655328 ACTTTCTTGAAAACAACAACACATCAA 59.345 29.630 0.00 0.00 0.00 2.57
451 452 7.116090 CACTTTCTTGAAAACAACAACACATCA 59.884 33.333 0.00 0.00 0.00 3.07
452 453 7.328249 TCACTTTCTTGAAAACAACAACACATC 59.672 33.333 0.00 0.00 0.00 3.06
456 527 9.868277 AATATCACTTTCTTGAAAACAACAACA 57.132 25.926 0.00 0.00 0.00 3.33
490 561 9.897744 CAACACATCAGAAACTACAACATATTT 57.102 29.630 0.00 0.00 0.00 1.40
491 562 9.066892 ACAACACATCAGAAACTACAACATATT 57.933 29.630 0.00 0.00 0.00 1.28
492 563 8.506437 CACAACACATCAGAAACTACAACATAT 58.494 33.333 0.00 0.00 0.00 1.78
493 564 7.041440 CCACAACACATCAGAAACTACAACATA 60.041 37.037 0.00 0.00 0.00 2.29
494 565 6.238731 CCACAACACATCAGAAACTACAACAT 60.239 38.462 0.00 0.00 0.00 2.71
495 566 5.065859 CCACAACACATCAGAAACTACAACA 59.934 40.000 0.00 0.00 0.00 3.33
496 567 5.065988 ACCACAACACATCAGAAACTACAAC 59.934 40.000 0.00 0.00 0.00 3.32
497 568 5.189928 ACCACAACACATCAGAAACTACAA 58.810 37.500 0.00 0.00 0.00 2.41
498 569 4.776349 ACCACAACACATCAGAAACTACA 58.224 39.130 0.00 0.00 0.00 2.74
499 570 5.751243 AACCACAACACATCAGAAACTAC 57.249 39.130 0.00 0.00 0.00 2.73
500 571 9.214957 CTATAAACCACAACACATCAGAAACTA 57.785 33.333 0.00 0.00 0.00 2.24
501 572 6.959639 ATAAACCACAACACATCAGAAACT 57.040 33.333 0.00 0.00 0.00 2.66
502 573 7.871853 ACTATAAACCACAACACATCAGAAAC 58.128 34.615 0.00 0.00 0.00 2.78
503 574 9.733556 ATACTATAAACCACAACACATCAGAAA 57.266 29.630 0.00 0.00 0.00 2.52
532 603 8.445275 AGTCAGTCATAAACAACAACATGTAA 57.555 30.769 0.00 0.00 32.02 2.41
533 604 9.719355 ATAGTCAGTCATAAACAACAACATGTA 57.281 29.630 0.00 0.00 32.02 2.29
543 614 9.500785 TGAACAATTCATAGTCAGTCATAAACA 57.499 29.630 0.00 0.00 34.08 2.83
544 615 9.979270 CTGAACAATTCATAGTCAGTCATAAAC 57.021 33.333 0.00 0.00 39.30 2.01
560 631 9.749490 CATGTTTGCAAAATATCTGAACAATTC 57.251 29.630 14.67 0.00 0.00 2.17
561 632 8.723311 CCATGTTTGCAAAATATCTGAACAATT 58.277 29.630 14.67 0.00 0.00 2.32
562 633 7.334921 CCCATGTTTGCAAAATATCTGAACAAT 59.665 33.333 14.67 0.00 0.00 2.71
564 635 6.164876 CCCATGTTTGCAAAATATCTGAACA 58.835 36.000 14.67 5.31 0.00 3.18
566 637 6.357579 ACCCATGTTTGCAAAATATCTGAA 57.642 33.333 14.67 0.00 0.00 3.02
567 638 5.999205 ACCCATGTTTGCAAAATATCTGA 57.001 34.783 14.67 0.00 0.00 3.27
568 639 8.721019 AATTACCCATGTTTGCAAAATATCTG 57.279 30.769 14.67 7.03 0.00 2.90
573 644 9.737844 AGATAAAATTACCCATGTTTGCAAAAT 57.262 25.926 14.67 7.20 0.00 1.82
575 646 9.646427 GTAGATAAAATTACCCATGTTTGCAAA 57.354 29.630 8.05 8.05 0.00 3.68
576 647 7.971168 CGTAGATAAAATTACCCATGTTTGCAA 59.029 33.333 0.00 0.00 0.00 4.08
579 650 7.067737 ACCCGTAGATAAAATTACCCATGTTTG 59.932 37.037 0.00 0.00 0.00 2.93
580 651 7.120716 ACCCGTAGATAAAATTACCCATGTTT 58.879 34.615 0.00 0.00 0.00 2.83
581 652 6.665695 ACCCGTAGATAAAATTACCCATGTT 58.334 36.000 0.00 0.00 0.00 2.71
582 653 6.256643 ACCCGTAGATAAAATTACCCATGT 57.743 37.500 0.00 0.00 0.00 3.21
583 654 6.652062 GGTACCCGTAGATAAAATTACCCATG 59.348 42.308 0.00 0.00 0.00 3.66
584 655 6.772605 GGTACCCGTAGATAAAATTACCCAT 58.227 40.000 0.00 0.00 0.00 4.00
585 656 6.173427 GGTACCCGTAGATAAAATTACCCA 57.827 41.667 0.00 0.00 0.00 4.51
603 674 2.419854 CCGACAGGATAGACGGGTACC 61.420 61.905 2.17 2.17 43.72 3.34
604 675 0.950116 CCGACAGGATAGACGGGTAC 59.050 60.000 0.00 0.00 41.87 3.34
608 679 1.336125 GTTACCCGACAGGATAGACGG 59.664 57.143 0.00 0.00 44.44 4.79
609 680 1.003116 CGTTACCCGACAGGATAGACG 60.003 57.143 0.00 0.00 41.02 4.18
610 681 1.336125 CCGTTACCCGACAGGATAGAC 59.664 57.143 0.00 0.00 41.02 2.59
611 682 1.683943 CCGTTACCCGACAGGATAGA 58.316 55.000 0.00 0.00 41.02 1.98
612 683 0.672342 CCCGTTACCCGACAGGATAG 59.328 60.000 0.00 0.00 41.02 2.08
613 684 0.033208 ACCCGTTACCCGACAGGATA 60.033 55.000 0.00 0.00 41.02 2.59
614 685 1.305549 ACCCGTTACCCGACAGGAT 60.306 57.895 0.00 0.00 41.02 3.24
615 686 1.978617 GACCCGTTACCCGACAGGA 60.979 63.158 0.00 0.00 41.02 3.86
616 687 1.980772 AGACCCGTTACCCGACAGG 60.981 63.158 0.00 0.00 43.78 4.00
617 688 1.214589 CAGACCCGTTACCCGACAG 59.785 63.158 0.00 0.00 39.56 3.51
618 689 1.228521 TCAGACCCGTTACCCGACA 60.229 57.895 0.00 0.00 39.56 4.35
619 690 0.962356 TCTCAGACCCGTTACCCGAC 60.962 60.000 0.00 0.00 39.56 4.79
620 691 0.251297 TTCTCAGACCCGTTACCCGA 60.251 55.000 0.00 0.00 39.56 5.14
621 692 0.604578 TTTCTCAGACCCGTTACCCG 59.395 55.000 0.00 0.00 0.00 5.28
622 693 2.845363 TTTTCTCAGACCCGTTACCC 57.155 50.000 0.00 0.00 0.00 3.69
654 725 8.654094 ACTCATCATCTTTATCCATACACATCA 58.346 33.333 0.00 0.00 0.00 3.07
655 726 9.499479 AACTCATCATCTTTATCCATACACATC 57.501 33.333 0.00 0.00 0.00 3.06
660 731 9.442047 CCCTAAACTCATCATCTTTATCCATAC 57.558 37.037 0.00 0.00 0.00 2.39
661 732 8.605947 CCCCTAAACTCATCATCTTTATCCATA 58.394 37.037 0.00 0.00 0.00 2.74
662 733 7.295672 TCCCCTAAACTCATCATCTTTATCCAT 59.704 37.037 0.00 0.00 0.00 3.41
663 734 6.619437 TCCCCTAAACTCATCATCTTTATCCA 59.381 38.462 0.00 0.00 0.00 3.41
664 735 7.079451 TCCCCTAAACTCATCATCTTTATCC 57.921 40.000 0.00 0.00 0.00 2.59
666 737 7.941238 CACATCCCCTAAACTCATCATCTTTAT 59.059 37.037 0.00 0.00 0.00 1.40
667 738 7.092444 ACACATCCCCTAAACTCATCATCTTTA 60.092 37.037 0.00 0.00 0.00 1.85
668 739 6.125029 CACATCCCCTAAACTCATCATCTTT 58.875 40.000 0.00 0.00 0.00 2.52
670 741 4.723789 ACACATCCCCTAAACTCATCATCT 59.276 41.667 0.00 0.00 0.00 2.90
671 742 5.041191 ACACATCCCCTAAACTCATCATC 57.959 43.478 0.00 0.00 0.00 2.92
674 745 5.823045 CCTTTACACATCCCCTAAACTCATC 59.177 44.000 0.00 0.00 0.00 2.92
675 746 5.253096 ACCTTTACACATCCCCTAAACTCAT 59.747 40.000 0.00 0.00 0.00 2.90
677 748 5.175388 ACCTTTACACATCCCCTAAACTC 57.825 43.478 0.00 0.00 0.00 3.01
678 749 6.445786 TCATACCTTTACACATCCCCTAAACT 59.554 38.462 0.00 0.00 0.00 2.66
679 750 6.655930 TCATACCTTTACACATCCCCTAAAC 58.344 40.000 0.00 0.00 0.00 2.01
680 751 6.126594 CCTCATACCTTTACACATCCCCTAAA 60.127 42.308 0.00 0.00 0.00 1.85
681 752 5.368523 CCTCATACCTTTACACATCCCCTAA 59.631 44.000 0.00 0.00 0.00 2.69
682 753 4.905456 CCTCATACCTTTACACATCCCCTA 59.095 45.833 0.00 0.00 0.00 3.53
685 756 4.451900 CACCTCATACCTTTACACATCCC 58.548 47.826 0.00 0.00 0.00 3.85
686 757 4.451900 CCACCTCATACCTTTACACATCC 58.548 47.826 0.00 0.00 0.00 3.51
687 758 3.877508 GCCACCTCATACCTTTACACATC 59.122 47.826 0.00 0.00 0.00 3.06
690 761 2.640184 GGCCACCTCATACCTTTACAC 58.360 52.381 0.00 0.00 0.00 2.90
691 762 1.562475 GGGCCACCTCATACCTTTACA 59.438 52.381 4.39 0.00 0.00 2.41
692 763 1.562475 TGGGCCACCTCATACCTTTAC 59.438 52.381 0.00 0.00 37.76 2.01
693 764 1.562475 GTGGGCCACCTCATACCTTTA 59.438 52.381 26.51 0.00 37.76 1.85
695 766 0.550147 AGTGGGCCACCTCATACCTT 60.550 55.000 32.30 8.32 37.76 3.50
696 767 0.341961 TAGTGGGCCACCTCATACCT 59.658 55.000 32.30 14.25 37.76 3.08
697 768 1.072331 CATAGTGGGCCACCTCATACC 59.928 57.143 32.30 5.65 37.76 2.73
698 769 2.037772 CTCATAGTGGGCCACCTCATAC 59.962 54.545 32.30 6.48 37.76 2.39
699 770 2.329267 CTCATAGTGGGCCACCTCATA 58.671 52.381 32.30 18.61 37.76 2.15
700 771 1.135094 CTCATAGTGGGCCACCTCAT 58.865 55.000 32.30 19.94 37.76 2.90
701 772 0.982852 CCTCATAGTGGGCCACCTCA 60.983 60.000 32.30 18.54 37.76 3.86
702 773 1.700042 CCCTCATAGTGGGCCACCTC 61.700 65.000 32.30 8.98 37.99 3.85
703 774 1.694169 CCCTCATAGTGGGCCACCT 60.694 63.158 32.30 21.16 37.99 4.00
704 775 2.919043 CCCTCATAGTGGGCCACC 59.081 66.667 32.30 15.08 37.99 4.61
710 781 2.050269 CGGCCTACCCTCATAGTGG 58.950 63.158 0.00 0.00 0.00 4.00
712 783 0.689745 TTGCGGCCTACCCTCATAGT 60.690 55.000 0.00 0.00 0.00 2.12
713 784 0.249911 GTTGCGGCCTACCCTCATAG 60.250 60.000 0.00 0.00 0.00 2.23
714 785 0.978667 TGTTGCGGCCTACCCTCATA 60.979 55.000 0.00 0.00 0.00 2.15
722 980 0.607762 TTCATTGCTGTTGCGGCCTA 60.608 50.000 0.00 0.00 43.34 3.93
726 984 0.311790 ACAGTTCATTGCTGTTGCGG 59.688 50.000 0.00 0.00 43.87 5.69
737 995 0.532573 ATCGGTCGAGCACAGTTCAT 59.467 50.000 15.89 0.00 0.00 2.57
743 1001 1.613317 AATCCCATCGGTCGAGCACA 61.613 55.000 15.89 0.00 0.00 4.57
747 1005 1.951130 CGCAATCCCATCGGTCGAG 60.951 63.158 0.00 0.00 0.00 4.04
748 1006 2.106131 CGCAATCCCATCGGTCGA 59.894 61.111 0.00 0.00 0.00 4.20
750 1008 2.203070 AGCGCAATCCCATCGGTC 60.203 61.111 11.47 0.00 0.00 4.79
751 1009 2.203070 GAGCGCAATCCCATCGGT 60.203 61.111 11.47 0.00 36.61 4.69
752 1010 3.341043 CGAGCGCAATCCCATCGG 61.341 66.667 11.47 0.00 0.00 4.18
753 1011 3.341043 CCGAGCGCAATCCCATCG 61.341 66.667 11.47 8.22 0.00 3.84
754 1012 3.654020 GCCGAGCGCAATCCCATC 61.654 66.667 11.47 0.00 37.47 3.51
793 1092 9.639601 TTCCTTTTCTTTCTTTCTTTTTGAGAC 57.360 29.630 0.00 0.00 33.02 3.36
803 1102 7.145932 TCCGATCATTCCTTTTCTTTCTTTC 57.854 36.000 0.00 0.00 0.00 2.62
811 1110 4.336433 TGAGCATTCCGATCATTCCTTTTC 59.664 41.667 0.00 0.00 34.35 2.29
820 1119 2.237143 AGTTTCCTGAGCATTCCGATCA 59.763 45.455 0.00 0.00 37.81 2.92
828 1128 1.272147 GGGTCCAAGTTTCCTGAGCAT 60.272 52.381 0.00 0.00 0.00 3.79
858 1158 2.277084 GTCAGTTCTTGTCGTGTGGTT 58.723 47.619 0.00 0.00 0.00 3.67
951 1263 3.158537 TTCTGTGCGTCGAGGCCAA 62.159 57.895 25.78 13.64 0.00 4.52
974 1287 2.481276 GCTCGTTTCCTTGGTTTGCTTT 60.481 45.455 0.00 0.00 0.00 3.51
996 1312 2.956964 CCCTCGCGACGCATCTTC 60.957 66.667 21.35 0.00 0.00 2.87
1194 1510 3.077556 TCCTCCTCCTCTTGCGCC 61.078 66.667 4.18 0.00 0.00 6.53
1248 1570 3.993081 CCGTCGAGTAGTAGTATCCGAAT 59.007 47.826 0.00 0.00 0.00 3.34
1276 1598 1.129251 CTCGTACTTGAACGGCGACTA 59.871 52.381 16.62 3.30 43.05 2.59
1461 1816 3.256558 CGTTCTGAGTGCTCATGAATCA 58.743 45.455 2.06 0.00 39.13 2.57
1558 2375 3.041946 GGAGGGAGTACATCACTGGATT 58.958 50.000 2.33 0.00 43.76 3.01
1569 2386 2.845363 TTTTGGAACGGAGGGAGTAC 57.155 50.000 0.00 0.00 0.00 2.73
1570 2387 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
1571 2388 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
1572 2389 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
1573 2390 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
1574 2391 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
1575 2392 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
1576 2393 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
1577 2394 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
1578 2395 5.643777 AGTTGAGTCATCTATTTTGGAACGG 59.356 40.000 1.70 0.00 0.00 4.44
1579 2396 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
1605 2422 9.694137 GACTCAACTCTGTACTAAAGTTTGTAT 57.306 33.333 0.00 0.00 31.04 2.29
1606 2423 8.689061 TGACTCAACTCTGTACTAAAGTTTGTA 58.311 33.333 0.00 0.00 31.04 2.41
1607 2424 7.553334 TGACTCAACTCTGTACTAAAGTTTGT 58.447 34.615 0.00 3.35 31.04 2.83
1608 2425 8.594881 ATGACTCAACTCTGTACTAAAGTTTG 57.405 34.615 0.00 0.55 31.04 2.93
1609 2426 8.643324 AGATGACTCAACTCTGTACTAAAGTTT 58.357 33.333 0.00 0.00 31.04 2.66
1610 2427 8.184304 AGATGACTCAACTCTGTACTAAAGTT 57.816 34.615 0.00 0.00 33.63 2.66
1611 2428 7.768807 AGATGACTCAACTCTGTACTAAAGT 57.231 36.000 0.00 0.00 0.00 2.66
1616 2433 8.807118 TCAAAATAGATGACTCAACTCTGTACT 58.193 33.333 0.00 0.00 0.00 2.73
1617 2434 8.988064 TCAAAATAGATGACTCAACTCTGTAC 57.012 34.615 0.00 0.00 0.00 2.90
1618 2435 9.996554 TTTCAAAATAGATGACTCAACTCTGTA 57.003 29.630 0.00 0.00 0.00 2.74
1619 2436 8.778358 GTTTCAAAATAGATGACTCAACTCTGT 58.222 33.333 0.00 0.00 0.00 3.41
1620 2437 7.954248 CGTTTCAAAATAGATGACTCAACTCTG 59.046 37.037 0.00 0.00 0.00 3.35
1621 2438 7.118390 CCGTTTCAAAATAGATGACTCAACTCT 59.882 37.037 0.00 0.00 0.00 3.24
1622 2439 7.117812 TCCGTTTCAAAATAGATGACTCAACTC 59.882 37.037 0.00 0.00 0.00 3.01
1623 2440 6.934645 TCCGTTTCAAAATAGATGACTCAACT 59.065 34.615 0.00 0.00 0.00 3.16
1624 2441 7.117812 TCTCCGTTTCAAAATAGATGACTCAAC 59.882 37.037 0.00 0.00 0.00 3.18
1625 2442 7.158697 TCTCCGTTTCAAAATAGATGACTCAA 58.841 34.615 0.00 0.00 0.00 3.02
1626 2443 6.697395 TCTCCGTTTCAAAATAGATGACTCA 58.303 36.000 0.00 0.00 0.00 3.41
1627 2444 7.036220 TCTCTCCGTTTCAAAATAGATGACTC 58.964 38.462 0.00 0.00 0.00 3.36
1628 2445 6.936279 TCTCTCCGTTTCAAAATAGATGACT 58.064 36.000 0.00 0.00 0.00 3.41
1629 2446 6.814146 ACTCTCTCCGTTTCAAAATAGATGAC 59.186 38.462 0.00 0.00 0.00 3.06
1630 2447 6.936279 ACTCTCTCCGTTTCAAAATAGATGA 58.064 36.000 0.00 0.00 0.00 2.92
1631 2448 7.976734 ACTACTCTCTCCGTTTCAAAATAGATG 59.023 37.037 0.00 0.00 0.00 2.90
1632 2449 8.068892 ACTACTCTCTCCGTTTCAAAATAGAT 57.931 34.615 0.00 0.00 0.00 1.98
1633 2450 7.463961 ACTACTCTCTCCGTTTCAAAATAGA 57.536 36.000 0.00 0.00 0.00 1.98
1634 2451 9.453325 GATACTACTCTCTCCGTTTCAAAATAG 57.547 37.037 0.00 0.00 0.00 1.73
1635 2452 9.186837 AGATACTACTCTCTCCGTTTCAAAATA 57.813 33.333 0.00 0.00 0.00 1.40
1636 2453 8.068892 AGATACTACTCTCTCCGTTTCAAAAT 57.931 34.615 0.00 0.00 0.00 1.82
1637 2454 7.463961 AGATACTACTCTCTCCGTTTCAAAA 57.536 36.000 0.00 0.00 0.00 2.44
1638 2455 8.571461 TTAGATACTACTCTCTCCGTTTCAAA 57.429 34.615 0.00 0.00 0.00 2.69
1639 2456 8.749026 ATTAGATACTACTCTCTCCGTTTCAA 57.251 34.615 0.00 0.00 0.00 2.69
1640 2457 9.842775 TTATTAGATACTACTCTCTCCGTTTCA 57.157 33.333 0.00 0.00 0.00 2.69
1753 4835 9.836076 TTCGAAAGAATATATATACACGTCCTG 57.164 33.333 0.00 0.00 46.92 3.86
1899 4983 4.470664 AGAGAAAGACAGCTTCCATCAGAT 59.529 41.667 0.00 0.00 31.82 2.90
1912 4996 3.550233 CGACGGAAGAACAGAGAAAGACA 60.550 47.826 0.00 0.00 0.00 3.41
1958 5042 3.773560 AGATGAGGTAGTCTATGCTCCC 58.226 50.000 0.00 0.00 0.00 4.30
1976 5060 0.901124 ACGCAGCTGAGAAGGAAGAT 59.099 50.000 25.03 0.00 0.00 2.40
2156 5296 2.125310 TTCGCGGCGGTCATTGAT 60.125 55.556 23.46 0.00 0.00 2.57
2173 5324 4.335647 CGGGGTTGCACTGGAGCT 62.336 66.667 0.00 0.00 34.99 4.09
2252 5403 1.188863 GGGCCAATGATGCTTTGTCT 58.811 50.000 4.39 0.00 0.00 3.41


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.